2024/01/21 by Shigeki Matsutani, Matsutani, Shigeki · 2 citations
Biochemistry, Genetics and Molecular Biology · Environmental Science · #Bacteriophages and microbial interactions #Biological Physics (physics.bio-ph) #DNA and Nucleic Acid Chemistry #Exactly Solvable and Integrable Systems (nlin.SI) #FOS: Physical sciences #Mathematical Physics (math-ph) #RNA Interference and Gene Delivery #Soft Condensed Matter (cond-mat.soft)
paper · pdf · doi:10.48550/arxiv.2402.04260
openalex publication_date 2024/01/21 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
This article studies the statistical mechanics of elastica as a model of the shapes of the supercoiled DNA, and shows that its excited states can be characterized by the focusing modified KdV (MKdV) equation due to thermal fluctuation. Following the previous paper (Matsutani and Previato, Physica D 430 (2022) 133073), the hyperelliptic solutions of the focusing modified KdV (MKdV) equation of genus three are considered. There appears a pattern as a repetition of the modulation of figure-eight and the inverse 'S' as a thermal fluctuation of elastica, called the S-eight mode. Our model states that the excited states of elastica due to the thermal effect have the S-eight mode, which reproduces the shapes of the AFM image of the supercoiled DNAs observed by Japaridze et al. (Nano Lett. 17 3, (2017) 1938).